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mmu_circDtd1_343
Basic information of circular RNA
PanCircBase ID:
mmu_circDtd1_343
mm39_Chr. Position ID:
chr2|144459111|144477784|+
Gene name:
Dtd1
Transcript:
ENSMUST00000028917.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,18566
Genomic length:
18673
Exon/intron sizes in nt:
2,36,107
Flanking exon/introns:
chr2:144445798-144459111|chr2:144477784-144588820
Splice length:
343
Other database IDs:
CIRCpedia: MMU_CIRCpedia_213346, circAtlas: mmu-Dtd1_0002
Human Ortholog IDs:
Mature spliced Sequence:
GGTTCGAAAGATTTTAAATCTGCGTGTGTTTGAGGACGAGAGTGGGAAGCACTGGTCCAAGAGCGTGATGGATAAGGAGTACGAGGTGCTGTGTGTCAGCCAGTTCACCCTCCAGTGCGTCCTCAAGGGGAACAAGCCCGACTTCCACCTGGCCATGCCCACAGAGCAGGCAGAGAGCTTCTACAACAGCTTCCTGGAGCAGCTTCGCAAGAGCTACAGACCAGAGCTTATCAGAGATGGCAAGTTTGGTGCCTACATGCAGGTGCACATTCAGAACGATGGGCCTGTGACTATAGAGCTGGAGTCCCCTGCTCCTGGAGCTGCTAGCTCTGACCCAAAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCACATTCAGAACGATGGGC
59.9
TGACACACAGCACCTCGTAC
59.97
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCACATTCAGAACGATGGGC
59.9
ATCACGCTCTTGGACCAGTG
60.04
148
PCR template sequence:
GTTTGGTGCCTACATGCAGGTGCACATTCAGAACGATGGGCCTGTGACTATAGAGCTGGAGTCCCCTGCTCCTGGAGCTGCTAGCTCTGACCCAAAGCAGGGTTCGAAAGATTTTAAATCTGCGTGTGTTTGAGGACGAGAGTGGGAAGCACTGGTCCAAGAGCGTGATGGATAAGGAGTACGAGGTGCTGTGTGTCAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGACCCAAAGCAGGGTTCGAAAGATT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDTD1_343_ORF_1
1.1133
0.413748773
0.675390538
309
ORF sequence:
ATGGATAAGGAGTACGAGGTGCTGTGTGTCAGCCAGTTCACCCTCCAGTGCGTCCTCAAGGGGAACAAGCCCGACTTCCACCTGGCCATGCCCACAGAGCAGGCAGAGAGCTTCTACAACAGCTTCCTGGAGCAGCTTCGCAAGAGCTACAGACCAGAGCTTATCAGAGATGGCAAGTTTGGTGCCTACATGCAGGTGCACATTCAGAACGATGGGCCTGTGACTATAGAGCTGGAGTCCCCTGCTCCTGGAGCTGCTAGCTCTGACCCAAAGCAGGGTTCGAAAGATTTTAAATCTGCGTGTGTTTGA
Peptide sequence:
MDKEYEVLCVSQFTLQCVLKGNKPDFHLAMPTEQAESFYNSFLEQLRKSYRPELIRDGKFGAYMQVHIQNDGPVTIELESPAPGAASSDPKQGSKDFKSACV
IRESfinder result
IRESfinder score
0.421159087
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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